Job ID = 14521789 SRX = SRX9399060 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6767171 spots for SRR12935341/SRR12935341.sra Written 6767171 spots for SRR12935341/SRR12935341.sra fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:02:59 6767171 reads; of these: 6767171 (100.00%) were paired; of these: 1103663 (16.31%) aligned concordantly 0 times 4980893 (73.60%) aligned concordantly exactly 1 time 682615 (10.09%) aligned concordantly >1 times ---- 1103663 pairs aligned concordantly 0 times; of these: 281279 (25.49%) aligned discordantly 1 time ---- 822384 pairs aligned 0 times concordantly or discordantly; of these: 1644768 mates make up the pairs; of these: 1203510 (73.17%) aligned 0 times 329646 (20.04%) aligned exactly 1 time 111612 (6.79%) aligned >1 times 91.11% overall alignment rate Time searching: 00:02:59 Overall time: 00:02:59 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 499624 / 5839048 = 0.0856 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 21:42:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 15 Jan 2022 21:42:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:42:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:42:21: 1000000 INFO @ Sat, 15 Jan 2022 21:42:25: 2000000 INFO @ Sat, 15 Jan 2022 21:42:30: 3000000 INFO @ Sat, 15 Jan 2022 21:42:34: 4000000 INFO @ Sat, 15 Jan 2022 21:42:39: 5000000 INFO @ Sat, 15 Jan 2022 21:42:43: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 21:42:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 15 Jan 2022 21:42:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:42:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:42:47: 7000000 INFO @ Sat, 15 Jan 2022 21:42:51: 1000000 INFO @ Sat, 15 Jan 2022 21:42:52: 8000000 INFO @ Sat, 15 Jan 2022 21:42:56: 2000000 INFO @ Sat, 15 Jan 2022 21:42:57: 9000000 INFO @ Sat, 15 Jan 2022 21:43:01: 3000000 INFO @ Sat, 15 Jan 2022 21:43:01: 10000000 INFO @ Sat, 15 Jan 2022 21:43:05: 4000000 INFO @ Sat, 15 Jan 2022 21:43:06: 11000000 INFO @ Sat, 15 Jan 2022 21:43:07: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:43:07: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:43:07: #1 total tags in treatment: 5170606 INFO @ Sat, 15 Jan 2022 21:43:07: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:43:07: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 21:43:08: #1 tags after filtering in treatment: 3460233 INFO @ Sat, 15 Jan 2022 21:43:08: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:43:08: #1 finished! INFO @ Sat, 15 Jan 2022 21:43:08: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:43:08: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:43:08: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:43:08: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 21:43:08: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:43:10: 5000000 INFO @ Sat, 15 Jan 2022 21:43:14: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 21:43:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Sat, 15 Jan 2022 21:43:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:43:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:43:19: 7000000 INFO @ Sat, 15 Jan 2022 21:43:21: 1000000 INFO @ Sat, 15 Jan 2022 21:43:23: 8000000 INFO @ Sat, 15 Jan 2022 21:43:26: 2000000 INFO @ Sat, 15 Jan 2022 21:43:28: 9000000 INFO @ Sat, 15 Jan 2022 21:43:31: 3000000 INFO @ Sat, 15 Jan 2022 21:43:33: 10000000 INFO @ Sat, 15 Jan 2022 21:43:35: 4000000 INFO @ Sat, 15 Jan 2022 21:43:37: 11000000 INFO @ Sat, 15 Jan 2022 21:43:39: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:43:39: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:43:39: #1 total tags in treatment: 5170606 INFO @ Sat, 15 Jan 2022 21:43:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:43:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 21:43:39: #1 tags after filtering in treatment: 3460233 INFO @ Sat, 15 Jan 2022 21:43:39: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:43:39: #1 finished! INFO @ Sat, 15 Jan 2022 21:43:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:43:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:43:39: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:43:39: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 21:43:39: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:43:40: 5000000 INFO @ Sat, 15 Jan 2022 21:43:45: 6000000 INFO @ Sat, 15 Jan 2022 21:43:49: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:43:54: 8000000 INFO @ Sat, 15 Jan 2022 21:43:59: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:44:03: 10000000 INFO @ Sat, 15 Jan 2022 21:44:08: 11000000 INFO @ Sat, 15 Jan 2022 21:44:09: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 21:44:09: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 21:44:09: #1 total tags in treatment: 5170606 INFO @ Sat, 15 Jan 2022 21:44:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:44:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 21:44:09: #1 tags after filtering in treatment: 3460233 INFO @ Sat, 15 Jan 2022 21:44:09: #1 Redundant rate of treatment: 0.33 INFO @ Sat, 15 Jan 2022 21:44:09: #1 finished! INFO @ Sat, 15 Jan 2022 21:44:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:44:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:44:10: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 21:44:10: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Sat, 15 Jan 2022 21:44:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399060/SRX9399060.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling